Can I set the width of the tree branches and distance between each two tree branches?

[yuezhao97]

Hi harbourlab,

Many thanks for providing this useful tool! I have two questions when trying to include it in my analysis. It would be great if you could help me with it.

1. I wonder if there is any way to set the gaps between the tree branches? Some tree branches will appear covered by others (e.g. the K-L branch covers the B-E-G branch below). Or is there a way to let K-L swing a little bit to the left side ? In your Nature Communications paper, there seems not this kind of issue. Did you change anything manually in the uphyloplot2.py file?

Any information would be useful. Many thanks in advance!

2. Also, I wonder if those branches with 0 percentage are redundant (like branches B, C, I, J, K shown below)? Do I need to get rid of them for plotting?

[mluciarr]

Hi! I have the same problems!
I am wondering what means when there is more than 1 letter in a group like in your case 1.1.2 has E and F branch ? Ha don't know how to interpret it.

Regarding your question about the branches covering other ones, try to use Inkscape to open the file there you can modify and move the branches to uncover them!